Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 109 of 295
Found at i:32763873 original size:16 final size:16
Alignment explanation
Indices: 32763852--32763885 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
32763842 ATTGGAAAGT
32763852 TTTTATAAATGTTATA
1 TTTTATAAATGTTATA
*
32763868 TTTTATAAATTTTATA
1 TTTTATAAATGTTATA
32763884 TT
1 TT
32763886 ATTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTATAAATGTTATA
Found at i:32768548 original size:21 final size:21
Alignment explanation
Indices: 32768513--32768553 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32768503 GCCACTACTA
**
32768513 TAGATCGAGTGTTAGCGGCGT
1 TAGATCGAGCATTAGCGGCGT
*
32768534 TAGATCGAGCATTAGTGGCG
1 TAGATCGAGCATTAGCGGCG
32768554 CTTTTTGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.27
Consensus pattern (21 bp):
TAGATCGAGCATTAGCGGCGT
Found at i:32768594 original size:40 final size:40
Alignment explanation
Indices: 32768534--32768646 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 40
32768524 TTAGCGGCGT
* *
32768534 TAGATCGAGCATTAGTGGCGCTTTTTGAAAAATGCCGCTA
1 TAGATAGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTA
* *
32768574 TAGATAGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTA
1 TAGATAGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTA
* * *
32768614 TA-AGTCA-ACCACTAGCGACGCTTTTTGAAAAAT
1 TAGA-T-AGAGCATTAGCGGCGCTTTTTGAAAAAT
32768647 ACCACAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 60 0.97
41 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGATAGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTA
Found at i:32768743 original size:40 final size:40
Alignment explanation
Indices: 32768699--32768833 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
32768689 ATTAGCGACA
* * * * *
32768699 CTTTTTGAAAAACGCCGCTACAGATTGAGCATTAACGATG
1 CTTTTTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGTG
* *
32768739 CTTTTTGAAAAACGTCGCTATAGGTCGAGCATTAGCGGCG
1 CTTTTTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGTG
* *
32768779 CTTTTTG-AAAACGCCGCTATAGGTCAACCATTAGCGGTG
1 CTTTTTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGTG
32768818 CTTTTTGAAAAACGCC
1 CTTTTTGAAAAACGCC
32768834 ACGAAAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
39 35 0.42
40 48 0.58
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (40 bp):
CTTTTTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGTG
Found at i:32769322 original size:7 final size:7
Alignment explanation
Indices: 32769310--32769363 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
32769300 TATCATTTTA
32769310 GTTTAAG
1 GTTTAAG
32769317 GTTTAAG
1 GTTTAAG
*
32769324 GTTTATG
1 GTTTAAG
*
32769331 GTTTAGG
1 GTTTAAG
* **
32769338 GTATATT
1 GTTTAAG
*
32769345 GTTTAGG
1 GTTTAAG
32769352 GTTTAAG
1 GTTTAAG
32769359 GTTTA
1 GTTTA
32769364 TGAATTACTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:32769334 original size:21 final size:21
Alignment explanation
Indices: 32769310--32769437 Score: 112
Period size: 21 Copynumber: 6.0 Consensus size: 21
32769300 TATCATTTTA
*
32769310 GTTTAAGGTTTAAGGTTTATG
1 GTTTAAGGTTTATGGTTTATG
* * * *
32769331 GTTTAGGGTATATTGTTTAGG
1 GTTTAAGGTTTATGGTTTATG
** *
32769352 GTTTAAGGTTTATGAATTACTA
1 GTTTAAGGTTTATGGTTTA-TG
* *
32769374 TTTTAAGGTTTATGGATTATGG
1 GTTTAAGGTTTATGGTTTAT-G
* * *
32769396 GTTTAGGGATTATGATTTATG
1 GTTTAAGGTTTATGGTTTATG
*
32769417 GTTTATGGTTTATGGTTTATG
1 GTTTAAGGTTTATGGTTTATG
32769438 TAACGCCCCC
Statistics
Matches: 82, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
21 50 0.61
22 32 0.39
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (21 bp):
GTTTAAGGTTTATGGTTTATG
Found at i:32769393 original size:7 final size:7
Alignment explanation
Indices: 32769375--32769437 Score: 72
Period size: 7 Copynumber: 8.9 Consensus size: 7
32769365 GAATTACTAT
*
32769375 TTTAAGG
1 TTTATGG
32769382 TTTATGG
1 TTTATGG
*
32769389 ATTATGGG
1 TTTAT-GG
*
32769397 TTTAGGG
1 TTTATGG
* *
32769404 ATTATGA
1 TTTATGG
32769411 TTTATGG
1 TTTATGG
32769418 TTTATGG
1 TTTATGG
32769425 TTTATGG
1 TTTATGG
32769432 TTTATG
1 TTTATG
32769438 TAACGCCCCC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
7 41 0.89
8 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.51
Consensus pattern (7 bp):
TTTATGG
Found at i:32769436 original size:14 final size:14
Alignment explanation
Indices: 32769310--32769437 Score: 94
Period size: 14 Copynumber: 9.0 Consensus size: 14
32769300 TATCATTTTA
* *
32769310 GTTTAAGGTTTAAG
1 GTTTATGGTTTATG
*
32769324 GTTTATGGTTTAGG
1 GTTTATGGTTTATG
* * *
32769338 GTATATTGTTTAGG
1 GTTTATGGTTTATG
*
32769352 GTTTAAGGTTTATG
1 GTTTATGGTTTATG
** ** *
32769366 AATTACTATTTTAAG
1 GTTTA-TGGTTTATG
*
32769381 GTTTATGGATTATGG
1 GTTTATGGTTTAT-G
* *
32769396 GTTTAGGGATTATG
1 GTTTATGGTTTATG
*
32769410 ATTTATGGTTTATG
1 GTTTATGGTTTATG
32769424 GTTTATGGTTTATG
1 GTTTATGGTTTATG
32769438 TAACGCCCCC
Statistics
Matches: 87, Mismatches: 25, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
14 66 0.76
15 21 0.24
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (14 bp):
GTTTATGGTTTATG
Found at i:32770862 original size:93 final size:93
Alignment explanation
Indices: 32770754--32770924 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
32770744 GCCCCTAAGT
* * *
32770754 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32770819 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
32770847 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCCA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32770912 CGAGTTCGGATGC
66 CGAGTTCGGATGC
32770925 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:32770921 original size:46 final size:46
Alignment explanation
Indices: 32770749--32770921 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
32770739 AACCCGCCCC
* * *
32770749 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
32770795 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
32770843 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
32770888 TAAGTGAACTCGGACTCAACTCCACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32770922 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:32772268 original size:29 final size:29
Alignment explanation
Indices: 32772226--32772286 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
32772216 TTAAGGGTTG
*
32772226 AGGTTTAAGGTTTA-GGTGTTAGGGGTTAA
1 AGGTTTAAGGTTTATGAT-TTAGGGGTTAA
* * *
32772255 AGGTTTATGTTTTATGATTTAGGGTTTAA
1 AGGTTTAAGGTTTATGATTTAGGGGTTAA
32772284 AGG
1 AGG
32772287 ATAGGGGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.43
Consensus pattern (29 bp):
AGGTTTAAGGTTTATGATTTAGGGGTTAA
Found at i:32772703 original size:34 final size:35
Alignment explanation
Indices: 32772662--32772739 Score: 122
Period size: 34 Copynumber: 2.2 Consensus size: 35
32772652 ATTATAACAA
32772662 TTTTTTTTCAAATTTTCAAA-TTTTTTGTTTTTGT
1 TTTTTTTTCAAATTTTCAAATTTTTTTGTTTTTGT
* *
32772696 TTTTTTTTCATATTTTGAAATTTTTTTGTTTTTGT
1 TTTTTTTTCAAATTTTCAAATTTTTTTGTTTTTGT
32772731 TATTTTTTT
1 T-TTTTTTT
32772740 TGAGAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 18 0.45
35 15 0.38
36 7 0.17
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.74
Consensus pattern (35 bp):
TTTTTTTTCAAATTTTCAAATTTTTTTGTTTTTGT
Found at i:32772737 original size:18 final size:18
Alignment explanation
Indices: 32772682--32772741 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
32772672 AATTTTCAAA
32772682 TTTTTTGTTTTTGTT-TT
1 TTTTTTGTTTTTGTTATT
** * *
32772699 TTTTTCATATTTTG-AAAT
1 TTTTTTGT-TTTTGTTATT
32772717 TTTTTTGTTTTTGTTATT
1 TTTTTTGTTTTTGTTATT
32772735 TTTTTTG
1 TTTTTTG
32772742 AGAAAATTCG
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
17 11 0.34
18 21 0.66
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (18 bp):
TTTTTTGTTTTTGTTATT
Found at i:32773606 original size:24 final size:24
Alignment explanation
Indices: 32773579--32773629 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
32773569 TTGATTATGA
32773579 AGTCTTCCTATTTCACAAATACGT
1 AGTCTTCCTATTTCACAAATACGT
*
32773603 AGTCTTCCTATTTCACAGATACGT
1 AGTCTTCCTATTTCACAAATACGT
32773627 AGT
1 AGT
32773630 TTTTCCTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (24 bp):
AGTCTTCCTATTTCACAAATACGT
Found at i:32778332 original size:19 final size:19
Alignment explanation
Indices: 32778308--32778346 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
32778298 TTTCCCCTAA
32778308 AAAATTTCCCCAAATACCT
1 AAAATTTCCCCAAATACCT
*
32778327 AAAATTTCCCCAAATCCCT
1 AAAATTTCCCCAAATACCT
32778346 A
1 A
32778347 GTTTTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATTTCCCCAAATACCT
Found at i:32782917 original size:42 final size:42
Alignment explanation
Indices: 32782778--32782918 Score: 158
Period size: 42 Copynumber: 3.4 Consensus size: 42
32782768 GTCTTTAGTT
* **
32782778 GCGTTTTTGGAGAAAGCGTCGCTAAAGGTAATGTCTTTAGTA
1 GCGTTTTTGGAGAAAGCGCCGCTAAAGGTAATGTCTTTAACA
* * * * * *
32782820 GCATTTGTGGAGAAAGTGCCGTTAAAGGTCATGTCTTTAACG
1 GCGTTTTTGGAGAAAGCGCCGCTAAAGGTAATGTCTTTAACA
* * *
32782862 GCGTTTTTGGGGAAAGCGCCGCAAAAGGTTATGTTCTTTAACA
1 GCGTTTTTGGAGAAAGCGCCGCTAAAGGTAATG-TCTTTAACA
32782905 GCGTTTTTGG-GAAA
1 GCGTTTTTGGAGAAA
32782919 AGTATCGTTA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 63 0.78
43 18 0.22
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (42 bp):
GCGTTTTTGGAGAAAGCGCCGCTAAAGGTAATGTCTTTAACA
Found at i:32782952 original size:43 final size:43
Alignment explanation
Indices: 32782838--32782952 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
32782828 GGAGAAAGTG
* *
32782838 CCGTTAAAGGTCATG-TCTTTAACGGCGTTTTTGGGGAAAGCG
1 CCGTTAAAGGTCATGTTCTTTAACGGCGTTTTTGGGAAAAGCA
** * * *
32782880 CCGCAAAAGGTTATGTTCTTTAACAGCGTTTTTGGGAAAAGTA
1 CCGTTAAAGGTCATGTTCTTTAACGGCGTTTTTGGGAAAAGCA
* *
32782923 TCGTTAAAGGTCATGTTCTTTAGCGGCGTT
1 CCGTTAAAGGTCATGTTCTTTAACGGCGTT
32782953 ATCTATAGTG
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 12 0.20
43 47 0.80
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
CCGTTAAAGGTCATGTTCTTTAACGGCGTTTTTGGGAAAAGCA
Found at i:32786164 original size:17 final size:17
Alignment explanation
Indices: 32786142--32786177 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32786132 TTGTTAGCTA
*
32786142 ATATATGCTAAATGTTG
1 ATATATGCAAAATGTTG
*
32786159 ATATATTCAAAATGTTG
1 ATATATGCAAAATGTTG
32786176 AT
1 AT
32786178 TTATAATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.42
Consensus pattern (17 bp):
ATATATGCAAAATGTTG
Found at i:32790292 original size:43 final size:42
Alignment explanation
Indices: 32790244--32790361 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
32790234 AGCTCGTACA
* * *
32790244 ATGCCAATATCCCAAACGTGGTCTTACATGTAATCGAATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAATA-CG
* * * *
32790287 ATGCCACTGTCCCAAACAAGGTCTTAAATGAAATCAAATACG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAATACG
* * * *
32790329 ATGCCGATGTCCTAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAA
32790362 ACCATAAGTC
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAAATACG
Found at i:32792178 original size:34 final size:34
Alignment explanation
Indices: 32792135--32792204 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
32792125 TGAATAATCC
*
32792135 GTGCATACTGGAATGAAATAAGCCGGTTTAGTCA
1 GTGCATACTGGAATGAAATAAGCCGATTTAGTCA
32792169 GTGCATACTGGAATGAAATAAGCCGATTTAGTCA
1 GTGCATACTGGAATGAAATAAGCCGATTTAGTCA
32792203 GT
1 GT
32792205 CTATCAACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (34 bp):
GTGCATACTGGAATGAAATAAGCCGATTTAGTCA
Found at i:32801551 original size:19 final size:20
Alignment explanation
Indices: 32801507--32801551 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
32801497 CAATTGGATG
32801507 AAGG-AAAAGAAAAGAAAGA
1 AAGGAAAAAGAAAAGAAAGA
*
32801526 AATGAAAAAG-AAAGAATA-A
1 AAGGAAAAAGAAAAGAA-AGA
32801545 AAGGAAA
1 AAGGAAA
32801552 GAAATGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (20 bp):
AAGGAAAAAGAAAAGAAAGA
Found at i:32803286 original size:26 final size:26
Alignment explanation
Indices: 32803225--32803286 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
32803215 CCATATGTTT
* *
32803225 TTAAAATTTAAGGAAATAATAATAGA
1 TTAAAAATTCAGGAAATAATAATAGA
* *
32803251 CTAAAAATTCAGGAAATAATGATAGA
1 TTAAAAATTCAGGAAATAATAATAGA
32803277 TTAAAAATTC
1 TTAAAAATTC
32803287 TATTACACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (26 bp):
TTAAAAATTCAGGAAATAATAATAGA
Found at i:32806636 original size:72 final size:72
Alignment explanation
Indices: 32806550--32806692 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
32806540 GGGCTTGCAT
* ** *
32806550 TTTGCTGCTCGCAACTATACACCTTTGACAGGCTCGCTTTTTTGCTTACTGTCTTCAACAGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
32806615 CTTCAAC
66 CTTCAAC
* ***
32806622 TTTGCTGCTTGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAGTTGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
32806687 CTTCAA
66 CTTCAA
32806693 TAGGCTCGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (72 bp):
TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
CTTCAAC
Found at i:32808144 original size:14 final size:14
Alignment explanation
Indices: 32808125--32808172 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
32808115 TGAGTTGCAG
32808125 AGAAATAGAAAGAA
1 AGAAATAGAAAGAA
32808139 AGAAATCA-AAAGAA
1 AGAAAT-AGAAAGAA
* * *
32808153 ATAAAGAGAGAGAA
1 AGAAATAGAAAGAA
32808167 AGAAAT
1 AGAAAT
32808173 TGCAATGAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.21, T:0.08
Consensus pattern (14 bp):
AGAAATAGAAAGAA
Found at i:32809804 original size:13 final size:13
Alignment explanation
Indices: 32809772--32809796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32809762 ATTAAGGGAT
32809772 TAATTTTTTTAAA
1 TAATTTTTTTAAA
32809785 TAATTTTTTTAA
1 TAATTTTTTTAA
32809797 TTGATTTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TAATTTTTTTAAA
Found at i:32810896 original size:7 final size:7
Alignment explanation
Indices: 32810884--32810909 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32810874 AGCTTGTCCT
32810884 TCATCTC
1 TCATCTC
32810891 TCATCTC
1 TCATCTC
32810898 TCATCTC
1 TCATCTC
32810905 TCATC
1 TCATC
32810910 CCTCTTCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (7 bp):
TCATCTC
Found at i:32811051 original size:18 final size:19
Alignment explanation
Indices: 32811030--32811067 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
32811020 TATTTCATGA
32811030 AAAATTA-AAAAAAAACAT
1 AAAATTACAAAAAAAACAT
32811048 AAAATTACTAAAAAAAACAT
1 AAAATTAC-AAAAAAAACAT
32811068 GTCGAGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAATTACAAAAAAAACAT
Found at i:32815885 original size:37 final size:37
Alignment explanation
Indices: 32815824--32815895 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
32815814 AACTCCACTG
* *
32815824 GATTATGCCTTGTAAGTGAATCTAGTGGACCTCCCCA
1 GATTATGCCTTATAAGTGAATCTAGCGGACCTCCCCA
* ** *
32815861 GATTATGCCTTATAGGTGGTTCTAGCGTACCTCCC
1 GATTATGCCTTATAAGTGAATCTAGCGGACCTCCC
32815896 TAAATCATGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (37 bp):
GATTATGCCTTATAAGTGAATCTAGCGGACCTCCCCA
Found at i:32815967 original size:6 final size:6
Alignment explanation
Indices: 32815956--32815985 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
32815946 AATAAAAACC
32815956 ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA
1 ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA
32815986 TCAGACCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCAAA
Found at i:32817085 original size:3 final size:3
Alignment explanation
Indices: 32817077--32817165 Score: 90
Period size: 3 Copynumber: 29.7 Consensus size: 3
32817067 TAATTTTAAA
* *
32817077 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATTT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
* * * * * *
32817123 ATT ACT ATT ACT ACT ATT -GT ATT TTT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
32817166 ACTATTAAAC
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
2 1 0.01
3 66 0.94
4 3 0.04
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:32827880 original size:3 final size:3
Alignment explanation
Indices: 32827872--32827903 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
32827862 CTAAAGAAAA
*
32827872 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
32827904 TAATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:32829738 original size:143 final size:143
Alignment explanation
Indices: 32829478--32830506 Score: 1345
Period size: 143 Copynumber: 7.2 Consensus size: 143
32829468 TCTCCTTGAT
* * * *
32829478 GTTGCAGTGGAACAGTTTAAAGCTACGAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGA
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
* * * *
32829543 GCAGGA-TGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAAATTGAAGATAGCGGAT
66 GCA-GATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGAT
* *
32829607 CTTATTTCCCTAAT
130 CTTATTTCCCTGAC
* * * *
32829621 ATTGCAGTGGAACAGATTGAAGCTTCAAATTATGGCGAATCTTATCTTTCTGAAGTTACAATGGA
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
* * * * * * *
32829686 GTAGATTAAAGCCACTAGCGTTATCTCCCTAAAGTTGCAGCAGAGCAGATTGAAAATTA-CGGAT
66 GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGA-TAGCGGAT
*
32829750 CTTATTTCCCTGAT
130 CTTATTTCCCTGAC
* *
32829764 GTTGCAGTGGAACAAATTGAGGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
* * * ** * * * *
32829829 GTAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAATGGAGTAGACTGAAGACATCGAATC
66 GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATC
32829894 TTATTTCCCTGAC
131 TTATTTCCCTGAC
* *
32829907 ATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATC-TTCTTGAAGTTGCAGTGG
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTC-TGAAGTTGCAGTGG
* * * * * * * * *
32829971 AGCAGATTGAAGCCGCCAACCTTATCTCCCTAAAGTTGTAACGGAGCAGACTGAAGACAACGAAT
65 AGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGAT
* *
32830036 CTTATTTCCCTTAT
130 CTTATTTCCCTGAC
* *
32830050 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGACTCTTATCTTTCTAAAGTTGCAGTGGA
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
* * * ***
32830115 GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTAAATC
66 GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATC
32830180 TTATTTCCCTGAC
131 TTATTTCCCTGAC
* *
32830193 GTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAATCTTATC-TTCTTAAAGTTGCAGTGG
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTC-TGAAGTTGCAGTGG
*
32830257 AGCAGATTGAAGCCA-TCAGCCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGATAGCGGA
65 AGCAGATTGAAGCCACT-AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGA
*
32830321 TCTTATTTCCTTGAC
129 TCTTATTTCCCTGAC
* *
32830336 GTTGTAGTGGAACAGATTGAGGCTACAAATTATGGCGAATCTTATC-TTCTTGAAGTTGCAGTGG
1 GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTC-TGAAGTTGCAGTGG
* * *
32830400 AACAGATTGAAGCCA-TCAGCCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCGGA
65 AGCAGATTGAAGCCACT-AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGA
* *
32830464 TCTTATTTCCCTAAA
129 TCTTATTTCCCTGAC
32830479 GTTGCAGT-GAAGCAGATTGAAGCTACAA
1 GTTGCAGTGGAA-CAGATTGAAGCTACAA
32830507 GTTACTGATA
Statistics
Matches: 789, Mismatches: 89, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
142 13 0.02
143 771 0.98
144 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (143 bp):
GTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTGAAGTTGCAGTGGA
GCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATC
TTATTTCCCTGAC
Found at i:32830266 original size:54 final size:48
Alignment explanation
Indices: 32829461--32830501 Score: 252
Period size: 54 Copynumber: 21.8 Consensus size: 48
32829451 TGAATCCACA
* * * * *
32829461 AATCTCATCTCCTTGATGTTGCAGTGGAACAGTTTAAAGCTACGAATTATGGCG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* * **
32829515 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGA-TGAAGCCACCAGC-
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACA-GATTGAAGCCATTAGCG
* * * * * *
32829562 ---CTTATCTCCCTAAAGTTGCAGCGGAGCAAATTGAAG--A-TAGCG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * *
32829604 GATCTTAT-TTCCCT-AATATTGCAGTGGAACAGATTGAAGCTTCAAATTATGGCG
1 AATCTTATCTT-CTTGAA-GTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* * ** * *
32829658 AATCTTATCTT-TCTGAAGTTACAATGGAGTAGATTAAAGCCACTAGCG
1 AATCTTATCTTCT-TGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * ** * *
32829706 ----TTATCTCCCTAAAGTTGCAGCAGAGCAGATTGAA--AATTA-CG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * * *
32829747 GATCTTAT-TTCCCTGATGTTGCAGTGGAACAAATTGAGGCTACAAATTATGGCG
1 AATCTTATCTT-CTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
** **
32829801 AATCTTATCTT-TCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGC-
1 AATCTTATCTTCT-TGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * ** * *
32829848 ---CTTATCTCCTTGAAGTTGCAATGGAGTAGACTGAAGACA-T--CG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* *
32829890 AATCTTAT-TTCCCTGACA-TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCG
1 AATCTTATCTT-CTTGA-AGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* *
32829944 AATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCC----GCC
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * * * ** * * *
32829988 AACCTTATCTCCCTAAAGTTGTAACGGAGCAGACTGAAGACA--A-CG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
*
32830033 AATCTTAT-TTCCCTT-ATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCG
1 AATCTTATCTT--CTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* * * *
32830087 ACTCTTATCTT-TCTAAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC-
1 AATCTTATCTTCT-TGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * * * * *
32830134 ---CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGTA---
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * *
32830176 AATCTTAT-TTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCG
1 AATCTTATCTT-CTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
* * *
32830230 AATCTTATCTTCTTAAAGTTGCAGTGGAGCAGATTGAAGCCATCAGC-
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * * *
32830277 ---CTTATCTCCCTGAAGTTGCAG-CGAAGCAGACTGAAG--A-TAGCG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAA-CAGATTGAAGCCATTAGCG
* * * *
32830319 GATCTTAT-TTCCTTGACGTTGTAGTGGAACAGATTGAGGCTACAAATTATGGCG
1 AATCTTATCTT-CTTGAAGTTGCAGTGGAACAGATTGAAGC--C--ATTA--GCG
*
32830373 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATCAGC-
1 AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
* * *
32830420 ---CTTATCTCCCTGAAGTTGCAGT-GAAGCAGACTGAAG--A-TAGCG
1 AATCTTATCTTCTTGAAGTTGCAGTGGAA-CAGATTGAAGCCATTAGCG
* * *
32830462 GATCTTAT-TTCCCTAAAGTTGCAGT-GAAGCAGATTGAAGC
1 AATCTTATCTT-CTTGAAGTTGCAGTGGAA-CAGATTGAAGC
32830502 TACAAGTTAC
Statistics
Matches: 732, Mismatches: 145, Indels: 228
0.66 0.13 0.21
Matches are distributed among these distances:
41 12 0.02
42 6 0.01
43 6 0.01
44 220 0.30
45 184 0.25
46 6 0.01
47 3 0.00
48 13 0.02
49 5 0.01
50 17 0.02
51 7 0.01
52 12 0.02
53 2 0.00
54 224 0.31
55 15 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (48 bp):
AATCTTATCTTCTTGAAGTTGCAGTGGAACAGATTGAAGCCATTAGCG
Found at i:32830279 original size:429 final size:428
Alignment explanation
Indices: 32829479--32830506 Score: 1497
Period size: 429 Copynumber: 2.4 Consensus size: 428
32829469 CTCCTTGATG
* * *
32829479 TTGCAGTGGAACAGTTTAAAGCTACGAATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAG
1 TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
* *
32829544 CAGGA-TGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAAATTGAAGATAGCGGATC
66 CA-GATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATC
* * *
32829608 TTATTTCCCTAATATTGCAGTGGAACAGATTGAAGCTTCAAATTATGGCGAATCTTATCTTTCTG
130 TTATTTCCCTAATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTA
* * * *
32829673 AAGTTACAATGGAGTAGATTAAAGCCACTAGCGTTATCTCCCTAAAGTTGCAGCAGAGCAGATTG
195 AAGTTACAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTA
* * * *
32829738 AAAATTACGGATCTTATTTCCCTGATGTTGCAGTGGAACAAATTGAGGCTACAAATTATGGCGAA
260 AAAAGTAC-AATCTTATTTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAA
* * *
32829803 TCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTGCA
324 TCTTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCA
* * * *
32829868 ATGGAGTAGACTGAAGACATCGAATCTTATTTCCCTGACA
389 ACGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACA
32829908 TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
1 TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
* * * * * * *
32829973 CAGATTGAAGCCGCCAACCTTATCTCCCTAAAGTTGTAACGGAGCAGACTGAAGACAACGAATCT
66 CAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATCT
* *
32830038 TATTTCCCTTATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGACTCTTATCTTTCTAA
131 TATTTCCCTAATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTAA
* * * * **
32830103 AGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
196 AGTTACAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTAA
32830168 AGACAGTA-AATCTTATTTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAA
261 A-A-AGTACAATCTTATTTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAA
*
32830232 TCTTATC-TTCTTAAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGC
324 TCTTATCTTTC-TAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* * * * *
32830296 AGCGAAGCAGACTGAAGATAGCGGATCTTATTTCCTTGACG
388 AACGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACA
* * * *
32830337 TTGTAGTGGAACAGATTGAGGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAA
1 TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
* * * *
32830402 CAGATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCGGATCT
66 CAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATCT
*
32830467 TATTTCCCTAAAGTTGCAGT-GAAGCAGATTGAAGCTACAA
131 TATTTCCCTAATGTTGCAGTGGAA-CAGATTGAAGCTACAA
32830507 GTTACTGATA
Statistics
Matches: 533, Mismatches: 61, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
428 8 0.02
429 521 0.98
430 1 0.00
431 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (428 bp):
TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAG
CAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGGATCT
TATTTCCCTAATGTTGCAGTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTTCTAA
AGTTACAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTAA
AAAGTACAATCTTATTTCCCTGACGTTGCAGTGGAACAAATTGAAGCTACAAATTATGGCGAATC
TTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAAC
GAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACA
Found at i:32830931 original size:20 final size:20
Alignment explanation
Indices: 32830906--32830943 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32830896 CCAAATCCAA
32830906 AAAC-AAACCTAAACCCAACT
1 AAACAAAACCT-AACCCAACT
32830926 AAACAAAACCTAACCCAA
1 AAACAAAACCTAACCCAA
32830944 AACCTATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.58, C:0.34, G:0.00, T:0.08
Consensus pattern (20 bp):
AAACAAAACCTAACCCAACT
Found at i:32831982 original size:3 final size:3
Alignment explanation
Indices: 32831974--32832096 Score: 103
Period size: 3 Copynumber: 42.3 Consensus size: 3
32831964 TAATTTTAAC
* * * *
32831974 ATT ATT ATT ACT -TT ATT ATT AAT ACT ATT ATT ATT A-T ATT -TT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** *
32832019 GTT ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ACA ACT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
32832065 ATT -GT ATT ATT ACT ATT ATT ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
32832097 AACTGATTTA
Statistics
Matches: 95, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
2 8 0.08
3 84 0.88
4 3 0.03
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:32832023 original size:19 final size:20
Alignment explanation
Indices: 32831976--32832096 Score: 115
Period size: 19 Copynumber: 6.0 Consensus size: 20
32831966 ATTTTAACAT
*
32831976 TATTATTACTTTATTATTAATAC
1 TATTATTA--TTA-TATTATTAC
32831999 TATTATTATTATATT-TTAC
1 TATTATTATTATATTATTAC
* *
32832018 TGTTATTATT-TATTATTAT
1 TATTATTATTATATTATTAC
32832037 TATTATTA-T-TATTATTAC
1 TATTATTATTATATTATTAC
* *
32832055 TATTACAACTATTGTATTATTAC
1 TATT---ATTATTATATTATTAC
32832078 TATTATTATTATATTATTA
1 TATTATTATTATATTATTA
32832097 AACTGATTTA
Statistics
Matches: 84, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
18 17 0.20
19 22 0.26
20 17 0.20
21 6 0.07
22 1 0.01
23 21 0.25
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (20 bp):
TATTATTATTATATTATTAC
Found at i:32832182 original size:17 final size:17
Alignment explanation
Indices: 32832157--32832197 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
32832147 TACTATTATT
32832157 TTTTATAGATTGGTTTTA
1 TTTT-TAGATTGGTTTTA
32832175 TTTTTAGATTGGTTTTA
1 TTTTTAGATTGGTTTTA
32832192 TTTTTA
1 TTTTTA
32832198 CTTTTATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (17 bp):
TTTTTAGATTGGTTTTA
Found at i:32838612 original size:12 final size:12
Alignment explanation
Indices: 32838595--32838626 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
32838585 TGTAATTGTC
32838595 CACACGGGTAGA
1 CACACGGGTAGA
32838607 CACACGGGTAGA
1 CACACGGGTAGA
32838619 CACACGGG
1 CACACGGG
32838627 CGTGTGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.34, T:0.06
Consensus pattern (12 bp):
CACACGGGTAGA
Found at i:32845818 original size:21 final size:23
Alignment explanation
Indices: 32845793--32845845 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
32845783 GCCTGAGCCA
32845793 CTGCTG-T-TGTTGTTGAAAATG
1 CTGCTGATGTGTTGTTGAAAATG
*
32845814 CTGCTGATTGTGTTGTTGAAAGTG
1 CTGCTGA-TGTGTTGTTGAAAATG
32845838 CTGCTGAT
1 CTGCTGAT
32845846 TATGAACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 6 0.21
23 2 0.07
24 20 0.71
ACGTcount: A:0.17, C:0.11, G:0.30, T:0.42
Consensus pattern (23 bp):
CTGCTGATGTGTTGTTGAAAATG
Found at i:32845832 original size:24 final size:24
Alignment explanation
Indices: 32845800--32845846 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
32845790 CCACTGCTGT
32845800 TGTTGTTGAAAATGCTGCTGATTG
1 TGTTGTTGAAAATGCTGCTGATTG
*
32845824 TGTTGTTGAAAGTGCTGCTGATT
1 TGTTGTTGAAAATGCTGCTGATT
32845847 ATGAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.09, G:0.30, T:0.43
Consensus pattern (24 bp):
TGTTGTTGAAAATGCTGCTGATTG
Found at i:32846685 original size:18 final size:18
Alignment explanation
Indices: 32846659--32846693 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32846649 ATATATTAAT
32846659 CCAAGTACCCAACCCAAA
1 CCAAGTACCCAACCCAAA
*
32846677 CCAATTACCCAACCCAA
1 CCAAGTACCCAACCCAA
32846694 TTATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.46, G:0.03, T:0.09
Consensus pattern (18 bp):
CCAAGTACCCAACCCAAA
Found at i:32846732 original size:5 final size:6
Alignment explanation
Indices: 32846719--32846759 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
32846709 ATAATTTAAT
32846719 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
32846760 ACATATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:32846753 original size:21 final size:22
Alignment explanation
Indices: 32846696--32846753 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
32846686 CAACCCAATT
*
32846696 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
32846721 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
32846741 ATAAAAATAAAAA
1 ATAAAAATAAAAA
32846754 TAAAAAACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 10 0.32
21 10 0.32
22 3 0.10
24 1 0.03
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:32846760 original size:20 final size:20
Alignment explanation
Indices: 32846719--32846760 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
32846709 ATAATTTAAT
**
32846719 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
32846739 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
32846759 AA
1 AA
32846761 CATATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:32846800 original size:9 final size:9
Alignment explanation
Indices: 32846779--32846837 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
32846769 TTTATACAAA
*
32846779 TAATTTGGT
1 TAATTCGGT
*
32846788 TAATTCGGG
1 TAATTCGGT
*
32846797 TAATTCGGG
1 TAATTCGGT
32846806 TAATTCGGT
1 TAATTCGGT
*
32846815 TAATTCGAT
1 TAATTCGGT
32846824 TAATTCGGT
1 TAATTCGGT
32846833 TAATT
1 TAATT
32846838 TTATACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:32847758 original size:18 final size:18
Alignment explanation
Indices: 32847715--32847768 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
32847705 ATAATAAAAT
*
32847715 ACTATTAAGATAAGTATTA
1 ACTATTAAAATAA-TATTA
* **
32847734 AAT-TTAATTTAATATTA
1 ACTATTAAAATAATATTA
32847751 ACTATTAAAATAATATTA
1 ACTATTAAAATAATATTA
32847769 TTTTTTGAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.25
18 19 0.68
19 2 0.07
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (18 bp):
ACTATTAAAATAATATTA
Found at i:32847764 original size:23 final size:22
Alignment explanation
Indices: 32847668--32847764 Score: 63
Period size: 23 Copynumber: 4.1 Consensus size: 22
32847658 ATAAATGTTA
*
32847668 AATTTAAT-CTAATATTAAAAT
1 AATTTAATATTAATATTAAAAT
*
32847689 AACCACTTTAATATTAATAATAAAAT
1 -A--A-TTTAATATTAATATTAAAAT
* * *
32847715 ACTATTAAGA-TAAGTATTAAATTT
1 AAT-TTAATATTAA-TATTAAA-AT
32847739 AATTTAATATTAACTATTAAAAT
1 AATTTAATATTAA-TATTAAAAT
32847762 AAT
1 AAT
32847765 ATTATTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
22 5 0.09
23 20 0.35
24 14 0.25
25 7 0.12
26 11 0.19
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTTAATATTAATATTAAAAT
Found at i:32851928 original size:40 final size:41
Alignment explanation
Indices: 32851803--32851999 Score: 156
Period size: 40 Copynumber: 4.9 Consensus size: 41
32851793 GTGTCAAATC
* * * *
32851803 ATAGCTGAAGCTATTAT-AATCTCGCACACTAAGTACCTTT-T
1 ATAGCTGAAGCTATTCTCAATAT-ACACACTAAGT-GCTTTAT
* * * * **
32851844 ATAGCCGAAGCTA-TCTCACTCTTGCACACTAAGTGCCATAT
1 ATAGCTGAAGCTATTCTCAAT-ATACACACTAAGTGCTTTAT
* *
32851885 ATAGCTGAAGCTATTCT-GAT-TCACACATTAAGTGCTTTAT
1 ATAGCTGAAGCTATTCTCAATAT-ACACACTAAGTGCTTTAT
32851925 ATAGCTGAAGCTA-TCTCAATATACACACTAAGTGCTTTAT
1 ATAGCTGAAGCTATTCTCAATATACACACTAAGTGCTTTAT
** * **
32851965 ATAGCCAAAGCTA-TCTCGATACGCACACTAAGTGC
1 ATAGCTGAAGCTATTCTCAATATACACACTAAGTGC
32852000 CAAACATAAC
Statistics
Matches: 128, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
39 4 0.03
40 80 0.62
41 40 0.31
42 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (41 bp):
ATAGCTGAAGCTATTCTCAATATACACACTAAGTGCTTTAT
Found at i:32851997 original size:80 final size:80
Alignment explanation
Indices: 32851825--32851999 Score: 201
Period size: 80 Copynumber: 2.2 Consensus size: 80
32851815 ATTATAATCT
* * * *
32851825 CGCACACTAAGTACCTTTTATAGCCGAAGCTATCTCACTCTTGCACACTAAGTGCCATATATAGC
1 CGCACACTAAGT-GCTTTTATAGCCGAAGCTATCTCAATCATACACACTAAGTGCCATATATAGC
** *
32851890 TGAAGCTATTCTGATT
65 CAAAGCTATTCTGATA
* * * **
32851906 CACACATTAAGTGCTTTATATAGCTGAAGCTATCTCAAT-ATACACACTAAGTGCTTTATATAGC
1 CGCACACTAAGTGCTTT-TATAGCCGAAGCTATCTCAATCATACACACTAAGTGCCATATATAGC
32851970 CAAAGCTA-TCTCGATA
65 CAAAGCTATTCT-GATA
32851986 CGCACACTAAGTGC
1 CGCACACTAAGTGC
32852000 CAAACATAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
79 3 0.04
80 46 0.59
81 29 0.37
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (80 bp):
CGCACACTAAGTGCTTTTATAGCCGAAGCTATCTCAATCATACACACTAAGTGCCATATATAGCC
AAAGCTATTCTGATA
Found at i:32857539 original size:19 final size:19
Alignment explanation
Indices: 32857517--32857558 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
32857507 AAGTAAACTT
32857517 ATAGAAGCTTAGTAAGCTC
1 ATAGAAGCTTAGTAAGCTC
32857536 ATAGAAGCTTAGTAAGCTC
1 ATAGAAGCTTAGTAAGCTC
32857555 ATAG
1 ATAG
32857559 GCATAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (19 bp):
ATAGAAGCTTAGTAAGCTC
Found at i:32861228 original size:21 final size:21
Alignment explanation
Indices: 32861202--32861244 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32861192 GATCACTGAG
32861202 TAAGAGATCTTACTGATTTGA
1 TAAGAGATCTTACTGATTTGA
32861223 TAAGAGATCTTACTGATTTGA
1 TAAGAGATCTTACTGATTTGA
32861244 T
1 T
32861245 GCATCTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (21 bp):
TAAGAGATCTTACTGATTTGA
Found at i:32865254 original size:13 final size:13
Alignment explanation
Indices: 32865202--32865265 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
32865192 TGTTTGGCAA
32865202 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
32865215 TACTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
32865228 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
32865241 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
32865254 TGCTTTTGAAAA
1 TGCTTTTGAAAA
32865266 TTTTAGATGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:32867390 original size:72 final size:72
Alignment explanation
Indices: 32867300--32867539 Score: 340
Period size: 72 Copynumber: 3.3 Consensus size: 72
32867290 AAAATCATAT
* *
32867300 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAATTTAATATCCCAA
1 ATAAACAACTATTGATAAAACTAGA-TTACATATAAATAAGTAGAACATAAATTCAATAT-CCAA
*
32867363 AGACCAAAC
64 AAACCAAAC
* * * * *
32867372 ATAAACAGCTATTAATAAAAGTAGATTACATATACATAAGTAGAACATAAATTCAATATTCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACATATAAATAAGTAGAACATAAATTCAATATCCAAAA
32867437 ACCAAAC
66 ACCAAAC
* * *
32867444 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAGTTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACATATAAATAAGTAGAACATAAATTCAATATCCAAAA
32867509 ACCAAAC
66 ACCAAAC
*
32867516 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
32867540 TTTAGCATTT
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
72 120 0.81
73 28 0.19
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.25
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACATATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:32867987 original size:18 final size:18
Alignment explanation
Indices: 32867966--32868013 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
32867956 TCCACCAATT
*
32867966 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
32867984 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
*
32868002 TCAACATCATTT
1 TGAACATCATTT
32868014 CTCACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:32870863 original size:52 final size:52
Alignment explanation
Indices: 32870762--32870865 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
32870752 CTGTAAGACA
*
32870762 TTTTCCATCTCCTCTTCATCCAGGTAAGCCTTTTTCTTCTTGCGTTCTTCAACT
1 TTTTCCATCTCCTCTTCATCCAGGTAAG-C-TCTTCTTCTTGCGTTCTTCAACT
* *
32870816 TTTTCCATCTCCTTCTTTATCCAGGTAAG-TCTTCTTCTTTCGTTCTTCAA
1 TTTTCCATCTCC-TCTTCATCCAGGTAAGCTCTTCTTCTTGCGTTCTTCAA
32870866 ATATCTTCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
52 19 0.41
54 12 0.26
55 15 0.33
ACGTcount: A:0.13, C:0.30, G:0.09, T:0.48
Consensus pattern (52 bp):
TTTTCCATCTCCTCTTCATCCAGGTAAGCTCTTCTTCTTGCGTTCTTCAACT
Found at i:32873918 original size:15 final size:15
Alignment explanation
Indices: 32873894--32873948 Score: 83
Period size: 15 Copynumber: 3.7 Consensus size: 15
32873884 ACTCCATTCC
* *
32873894 CTTTACTCATGGTAA
1 CTTTAGTCATAGTAA
*
32873909 CTTTAATCATAGTAA
1 CTTTAGTCATAGTAA
32873924 CTTTAGTCATAGTAA
1 CTTTAGTCATAGTAA
32873939 CTTTAGTCAT
1 CTTTAGTCAT
32873949 TGCTTGAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (15 bp):
CTTTAGTCATAGTAA
Found at i:32875832 original size:25 final size:25
Alignment explanation
Indices: 32875804--32875912 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
32875794 AGGTGTATAC
*
32875804 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
32875829 ATAGCATTAAAAATATATACATAAG
1 ATAGTATTAAAAATATATACATAAT
* *
32875854 ATAATATGT--AAA-A-AT--GTAAT
1 ATAGTAT-TAAAAATATATACATAAT
* *
32875874 ATAGTATTAGAAATATATACATGAT
1 ATAGTATTAAAAATATATACATAAT
*
32875899 ATA-TATAAAAAATA
1 ATAGTATTAAAAATA
32875913 CAATATTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
19 1 0.02
20 9 0.14
21 3 0.05
22 3 0.05
23 3 0.05
24 12 0.18
25 33 0.51
26 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:32875895 original size:70 final size:69
Alignment explanation
Indices: 32875746--32875901 Score: 167
Period size: 70 Copynumber: 2.2 Consensus size: 69
32875736 ATGATATATG
* * *
32875746 AATATATACATATAT-GTATTAAAATATATACGTAATAATAGGAATAAAAGGTGTATACATAGTA
1 AATATATACATATATAGCATTAAAATATATACATAATAATAGG-ATAAAAGATGTATACATAGTA
32875810 TTAAA
65 TTAAA
* * *
32875815 AATATGTACATAATATAGCATTAAAAATATATACATAAGATAATATG-TAAAA-ATGTA-ATATA
1 AATATATACAT-ATATAGCATT-AAAATATATACAT-A-ATAATAGGATAAAAGATGTATACATA
*
32875877 GTATTAGA
62 GTATTAAA
32875885 AATATATACATGATATA
1 AATATATACAT-ATATA
32875902 TATAAAAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
69 10 0.14
70 30 0.41
71 8 0.11
72 17 0.23
73 1 0.01
74 7 0.10
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.33
Consensus pattern (69 bp):
AATATATACATATATAGCATTAAAATATATACATAATAATAGGATAAAAGATGTATACATAGTAT
TAAA
Found at i:32875911 original size:43 final size:44
Alignment explanation
Indices: 32875825--32875911 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
32875815 AATATGTACA
*
32875825 TAATATAGCATTAAAAATATATACATAAGATAATATGTAAAAATG
1 TAATATAGCATTAAAAATATATACAT-AGATAATATGAAAAAATG
* *
32875870 TAATATAGTATTAGAAATATATACAT-GATATATAT-AAAAAAT
1 TAATATAGCATTAAAAATATATACATAGATA-ATATGAAAAAAT
32875912 ACAATATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 10 0.26
44 4 0.11
45 24 0.63
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.33
Consensus pattern (44 bp):
TAATATAGCATTAAAAATATATACATAGATAATATGAAAAAATG
Found at i:32876755 original size:37 final size:37
Alignment explanation
Indices: 32876714--32876786 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
32876704 ACCCCAGCCC
** *
32876714 ACTAACTTAATAATCCAAGCCCAACATAAACTAACCT
1 ACTAACTTAATAATCCAAAACCAACACAAACTAACCT
* *
32876751 ACTAACTTAATATTTCAAAACCAACACAAACTAACC
1 ACTAACTTAATAATCCAAAACCAACACAAACTAACC
32876787 CATCTCACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (37 bp):
ACTAACTTAATAATCCAAAACCAACACAAACTAACCT
Found at i:32877431 original size:30 final size:29
Alignment explanation
Indices: 32877390--32877535 Score: 143
Period size: 30 Copynumber: 4.9 Consensus size: 29
32877380 TGTAATTTTT
* *
32877390 AAAAA-TTTAGGGTCAAATTGTAATTTAA
1 AAAAAGTTTAGGGTCAAAATGAAATTTAA
* *
32877418 AAGAAAGTTTAGGGGTCGAAGTGAAATTTAA
1 AA-AAAGTTTA-GGGTCAAAATGAAATTTAA
* *
32877449 ATAAAGTTTAGGGGTCAAAATGAAATTTAG
1 AAAAAGTTTA-GGGTCAAAATGAAATTTAA
* * *
32877479 AAAAATTTTAGGTGTCAAAATGCAATTTAC
1 AAAAAGTTTAGG-GTCAAAATGAAATTTAA
*
32877509 AAAAAGTTTAAGGGTC-AAATGCAATTT
1 AAAAAGTTT-AGGGTCAAAATGAAATTT
32877536 TTTCATTTTT
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.02
29 16 0.16
30 63 0.62
31 20 0.20
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (29 bp):
AAAAAGTTTAGGGTCAAAATGAAATTTAA
Found at i:32878013 original size:78 final size:78
Alignment explanation
Indices: 32877726--32878200 Score: 465
Period size: 78 Copynumber: 6.0 Consensus size: 78
32877716 TTATTCTTTA
* * * * * * * *
32877726 TTGAAAAACAAAAAATTG-GAAATAGCTCGGGATGCGACCCGAAGTTCAACTCACCTCTCGGATT
1 TTGAAAAAC-AAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
32877790 ATGAGTTGA--TCT
65 ATGAGTTGATTTTT
* * * *
32877802 TTGAAAAAGCAAAAAATTG-AAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAA
1 TTGAAAAA-C-AAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
32877866 TATGAGTTGATTGTTTTTTTT
64 TATGAGTTGA------TTTTT
* * *
32877887 TTGAAAAACAAAAATTGAAAAATACTTCGGTATGTGACCCGAGGCTCAACTCACCTCTCACAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
32877952 TGAGTTGATTTTT
66 TGAGTTGATTTTT
** * * * * * ** *
32877965 TTGAAAGGCAAAAATTGAAAAAAACTTCAGCATGTGATCCGAGCCTCAACTCGTCTCTCGTAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
**
32878030 TGAGTT-AAGTTT
66 TGAGTTGATTTTT
* * * * * * * *
32878042 TTGAAAGACAGAAATTGAAAAATACCTCGGCATGTAACCCTAGCCTTAACTCACCTTTCGTAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
32878107 TGAGTTGATTTTT
66 TGAGTTGATTTTT
* * ** *
32878120 TTGAAAAATAGAAATTGAAAAATACCTCGGTGTGTGACCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
32878185 TGAGTTGATTTTT
66 TGAGTTGATTTTT
32878198 TTG
1 TTG
32878201 TTTTGGAAAA
Statistics
Matches: 331, Mismatches: 57, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
76 8 0.02
77 116 0.35
78 140 0.42
83 8 0.02
84 49 0.15
85 10 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (78 bp):
TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTT
Found at i:32878198 original size:155 final size:155
Alignment explanation
Indices: 32877726--32878198 Score: 452
Period size: 155 Copynumber: 3.0 Consensus size: 155
32877716 TTATTCTTTA
* * * ** * ** *
32877726 TTGAAAAACAAAAAATTG-GAAATAGCTCGGGATGCGACCCGAAG-TTCAACTCACCTCTCGGAT
1 TTGAAAAAC-AAAAATTGAAAAATACCTCGGCATGTAACCCG-AGCCTCAACTCACCTCTCACAA
* * *
32877789 TATGAGTTGA--TCTTTGAAAAAGCAAAAAATTG-AAAATACCTCAGCGTGTGACCTGAGGCTTA
64 TATGAGTTGATTTTTTTGAAAAA-C-AAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCA
32877851 ACTCACCTCTCGCAATATGAGTTGATTGTTTTTTTT
127 ACTCACCTCTCGCAATATGAGTTGA-------TTTT
* * * *
32877887 TTGAAAAACAAAAATTGAAAAATACTTCGGTATGTGACCCGAGGCTCAACTCACCTCTCACAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTAACCCGAGCCTCAACTCACCTCTCACAATA
** * * * * *
32877952 TGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAAAAACTTCAGCATGTGATCCGAGCCTCAACTC
66 TGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTC
** * * *
32878017 GTCTCTCGTAATATGAGTTAAGTTT
131 ACCTCTCGCAATATGAGTTGATTTT
* * * * * **
32878042 TTGAAAGACAGAAATTGAAAAATACCTCGGCATGTAACCCTAGCCTTAACTCACCTTTCGTAATA
1 TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTAACCCGAGCCTCAACTCACCTCTCACAATA
* * * * *
32878107 TGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAATACCTCGGTGTGTGACCCAAGGCTCAACTC
66 TGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTC
32878172 ACCTCTCGCAATATGAGTTGATTTT
131 ACCTCTCGCAATATGAGTTGATTTT
32878197 TT
1 TT
32878199 TGTTTTGGAA
Statistics
Matches: 255, Mismatches: 52, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
155 132 0.52
160 10 0.04
161 60 0.24
162 45 0.18
163 8 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (155 bp):
TTGAAAAACAAAAATTGAAAAATACCTCGGCATGTAACCCGAGCCTCAACTCACCTCTCACAATA
TGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTT
Found at i:32886649 original size:22 final size:22
Alignment explanation
Indices: 32886618--32886662 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
32886608 ATGCAATGAA
*
32886618 TGAATGAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
32886640 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
32886662 T
1 T
32886663 AGTCATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:32890593 original size:25 final size:25
Alignment explanation
Indices: 32890565--32890673 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
32890555 AGGTGTATAC
*
32890565 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
32890590 ATAGCATTAAAAATATATACATAAG
1 ATAGTATTAAAAATATATACATAAT
* *
32890615 ATAATATGT--AAA-A-AT--GTAAT
1 ATAGTAT-TAAAAATATATACATAAT
* *
32890635 ATAGTATTAGAAATATATACATTAT
1 ATAGTATTAAAAATATATACATAAT
*
32890660 ATA-TATAAAAAATA
1 ATAGTATTAAAAATA
32890674 CAATATTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
19 1 0.02
20 9 0.14
21 3 0.05
22 3 0.05
23 3 0.05
24 12 0.18
25 33 0.51
26 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:32890656 original size:70 final size:69
Alignment explanation
Indices: 32890507--32890662 Score: 167
Period size: 70 Copynumber: 2.2 Consensus size: 69
32890497 ATGATATCTG
* * *
32890507 AATATATACATATAT-GTATTAAAATATATACGTAATAATAGGAATAAAAGGTGTATACATAGTA
1 AATATATACATATATAGCATTAAAATATATACATAATAATAGG-ATAAAAGATGTATACATAGTA
32890571 TTAAA
65 TTAAA
* * *
32890576 AATATGTACATAATATAGCATTAAAAATATATACATAAGATAATATG-TAAAA-ATGTA-ATATA
1 AATATATACAT-ATATAGCATT-AAAATATATACAT-A-ATAATAGGATAAAAGATGTATACATA
*
32890638 GTATTAGA
62 GTATTAAA
32890646 AATATATACATTATATA
1 AATATATACA-TATATA
32890663 TATAAAAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
69 10 0.14
70 29 0.40
71 9 0.12
72 17 0.23
73 1 0.01
74 7 0.10
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (69 bp):
AATATATACATATATAGCATTAAAATATATACATAATAATAGGATAAAAGATGTATACATAGTAT
TAAA
Found at i:32890838 original size:23 final size:24
Alignment explanation
Indices: 32890812--32890856 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
32890802 TATATATATT
32890812 AAAAATAAATACAT-AATAAAATC
1 AAAAATAAATACATAAATAAAATC
* **
32890835 AAAAGTATGTACATAAATAAAA
1 AAAAATAAATACATAAATAAAA
32890857 ATAACATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAAATAAATACATAAATAAAATC
Found at i:32891104 original size:24 final size:24
Alignment explanation
Indices: 32891077--32891131 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
32891067 TTAAAAATAT
* *
32891077 ATATATACATGATATA-TATATGAA
1 ATATATACATAATATAGT-TATAAA
**
32891101 ATATGCACATAATATAGTTATAAA
1 ATATATACATAATATAGTTATAAA
32891125 ATATATA
1 ATATATA
32891132 TATATTAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTTATAAA
Found at i:32891454 original size:21 final size:21
Alignment explanation
Indices: 32891430--32891485 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 21
32891420 CAAACCAACC
32891430 CCAACCCACTAACTTAATA-A
1 CCAACCCACTAACTTAATAGA
*
32891450 TCCAAGCC-C-AAC---ATAGA
1 -CCAACCCACTAACTTAATAGA
32891467 CCAACCCACTAACTTAATA
1 CCAACCCACTAACTTAATA
32891486 TTTCAAACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
16 9 0.33
17 2 0.07
18 3 0.11
19 3 0.11
20 1 0.04
21 9 0.33
ACGTcount: A:0.43, C:0.36, G:0.04, T:0.18
Consensus pattern (21 bp):
CCAACCCACTAACTTAATAGA
Found at i:32891510 original size:37 final size:37
Alignment explanation
Indices: 32891432--32891552 Score: 102
Period size: 37 Copynumber: 3.2 Consensus size: 37
32891422 AACCAACCCC
* * * * * **
32891432 AACCCACTAACTTAATAATCCAAGCCCAACATAGACC
1 AACCCACTAACTTAATATTTCAAACCCAACACAAATT
32891469 AACCCACTAACTTAATATTTCAAACCCAACACAAATT
1 AACCCACTAACTTAATATTTCAAACCCAACACAAATT
* *
32891506 AACCCATCTCACTAACTTAACATTTC--ACCAAACACAAATT
1 AA--C--C-CACTAACTTAATATTTCAAACCCAACACAAATT
32891546 AACCCAC
1 AACCCAC
32891553 AACAAACAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
35 3 0.04
36 1 0.01
37 32 0.46
38 1 0.01
39 1 0.01
40 15 0.21
41 1 0.01
42 16 0.23
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.21
Consensus pattern (37 bp):
AACCCACTAACTTAATATTTCAAACCCAACACAAATT
Found at i:32891551 original size:40 final size:41
Alignment explanation
Indices: 32891473--32891551 Score: 124
Period size: 40 Copynumber: 1.9 Consensus size: 41
32891463 TAGACCAACC
* *
32891473 CACTAACTTAATATTTCAAACCCAACACAAATTAACCCATCT
1 CACTAACTTAACATTTC-AACCAAACACAAATTAACCCATCT
32891515 CACTAACTTAACATTTC-ACCAAACACAAATTAACCCA
1 CACTAACTTAACATTTCAACCAAACACAAATTAACCCA
32891552 CAACAAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 19 0.54
42 16 0.46
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (41 bp):
CACTAACTTAACATTTCAACCAAACACAAATTAACCCATCT
Found at i:32892168 original size:30 final size:30
Alignment explanation
Indices: 32892118--32892258 Score: 96
Period size: 30 Copynumber: 4.7 Consensus size: 30
32892108 TTTTTAAAAA
* *
32892118 TTTAG-GGTCAAATTGTAATTTAAAGAAAG
1 TTTAGAGGTCAAAATGAAATTTAAAGAAAG
** * *
32892147 TTTAGAGGTTGAAGTGAAATTTAAATAAAG
1 TTTAGAGGTCAAAATGAAATTTAAAGAAAG
* *
32892177 TTTAGGGGTCAAAATGAAATTT-AGGAAAGG
1 TTTAGAGGTCAAAATGAAATTTAAAGAAA-G
* *
32892207 TTTAG-GTGTCAGAAT-ACAATTT-ACGAAAAG
1 TTTAGAG-GTCAAAATGA-AATTTAAAG-AAAG
*
32892237 TTTA-AGGGTCAAAATGCAATTT
1 TTTAGA-GGTCAAAATGAAATTT
32892259 TTTTATTTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
29 11 0.12
30 74 0.83
31 4 0.04
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (30 bp):
TTTAGAGGTCAAAATGAAATTTAAAGAAAG
Found at i:32892923 original size:27 final size:27
Alignment explanation
Indices: 32892893--32892965 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
32892883 TGTCTTGAAT
32892893 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
32892920 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
32892952 TTGTTGGATATTGA
1 TTGTTAGATATTGA
32892966 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:32892945 original size:32 final size:32
Alignment explanation
Indices: 32892906--32892966 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
32892896 TTAGATATTG
32892906 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
32892938 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
32892967 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:32893685 original size:34 final size:34
Alignment explanation
Indices: 32893642--32893710 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
32893632 AAATGCTCAA
32893642 GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
1 GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
32893676 GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
1 GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
32893710 G
1 G
32893711 TGAACAACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (34 bp):
GAAAGTTTCGTTGATGAACAAATTAAATTTGTGG
Found at i:32894457 original size:14 final size:14
Alignment explanation
Indices: 32894420--32894450 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
32894410 CCAGAAAAGT
32894420 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
32894434 AAATCATTTTCCGG
1 AAATCATTTTCCAG
32894448 AAA
1 AAA
32894451 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:32894968 original size:11 final size:12
Alignment explanation
Indices: 32894944--32894999 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
32894934 ATCAATTTCA
32894944 ATTAAATAAATT
1 ATTAAATAAATT
32894956 ATTAAAT-AATT
1 ATTAAATAAATT
* *
32894967 ATAAAATTTAAAGT
1 ATTAAA--TAAATT
*
32894981 ATTAAAAAAATT
1 ATTAAATAAATT
*
32894993 ATAAAAT
1 ATTAAAT
32895000 TTAGTTCAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
11 9 0.26
12 16 0.47
13 1 0.03
14 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
ATTAAATAAATT
Found at i:32894999 original size:26 final size:25
Alignment explanation
Indices: 32894950--32895002 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
32894940 TTCAATTAAA
* *
32894950 TAAATTATTAAATAATTATAAAATT
1 TAAAGTATTAAAAAATTATAAAATT
32894975 TAAAGTATTAAAAAAATTATAAAATT
1 TAAAGTATT-AAAAAATTATAAAATT
32895001 TA
1 TA
32895003 GTTCAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAAGTATTAAAAAATTATAAAATT
Found at i:32896104 original size:30 final size:30
Alignment explanation
Indices: 32896068--32896130 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
32896058 ACTTAATAAG
32896068 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
32896098 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
32896128 CAA
1 CAA
32896131 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:32896556 original size:10 final size:9
Alignment explanation
Indices: 32896541--32896691 Score: 57
Period size: 9 Copynumber: 16.8 Consensus size: 9
32896531 AGATTATTAT
32896541 TATAAATATA
1 TATAAA-ATA
32896551 TATAAAATA
1 TATAAAATA
**
32896560 T-TAATTTA
1 TATAAAATA
32896568 TA-AAAATA
1 TATAAAATA
*
32896576 GA-AAAATA
1 TATAAAATA
*
32896584 TATACAAT-
1 TATAAAATA
*
32896592 TA-AAAAAA
1 TATAAAATA
32896600 TATAAAA-A
1 TATAAAATA
*
32896608 GCGTATAATAT-
1 ---TATAAAATA
*
32896619 TTTGAAAAATA
1 TAT-A-AAATA
*
32896630 TATAAAAATC
1 TAT-AAAATA
**
32896640 TATAATCTA
1 TATAAAATA
*
32896649 TATAAAATTT
1 TATAAAA-TA
32896659 TATAAAAT-
1 TATAAAATA
32896667 TATAAAATA
1 TATAAAATA
* *
32896676 AATAAAAAA
1 TATAAAATA
32896685 TATAAAA
1 TATAAAA
32896692 GAACTAAAAA
Statistics
Matches: 104, Mismatches: 24, Indels: 27
0.67 0.15 0.17
Matches are distributed among these distances:
7 3 0.03
8 33 0.32
9 35 0.34
10 24 0.23
11 9 0.09
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
TATAAAATA
Found at i:32896655 original size:29 final size:29
Alignment explanation
Indices: 32896592--32896691 Score: 82
Period size: 30 Copynumber: 3.5 Consensus size: 29
32896582 TATATACAAT
* * *
32896592 TAAAAAAATATAAAAAGCGTATAATAT-TT
1 TAAAAATATATAAAAATC-TATAATATATA
*
32896621 TGAAAAATATATAAAAATCTATAATCTATA
1 T-AAAAATATATAAAAATCTATAATATATA
* * * *
32896651 TAAAATTTTAT-AAAAT-TATAAAATAAA
1 TAAAAATATATAAAAATCTATAATATATA
32896678 TAAAAA-ATATAAAA
1 TAAAAATATATAAAA
32896692 GAACTAAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
26 3 0.05
27 16 0.28
28 5 0.09
29 16 0.28
30 17 0.30
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (29 bp):
TAAAAATATATAAAAATCTATAATATATA
Found at i:32896683 original size:18 final size:18
Alignment explanation
Indices: 32896662--32896701 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32896652 AAAATTTTAT
* *
32896662 AAAATTATAAAATAAATA
1 AAAAATATAAAAGAAATA
*
32896680 AAAAATATAAAAGAACTA
1 AAAAATATAAAAGAAATA
32896698 AAAA
1 AAAA
32896702 GCACATCAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
AAAAATATAAAAGAAATA
Found at i:32896841 original size:23 final size:23
Alignment explanation
Indices: 32896787--32896842 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
32896777 TCTTAATGTG
**
32896787 ATTTTTTATATTTTTATTAATTTA
1 ATTTTTT-TATTTTTATTAAAATA
*
32896811 ATTATTTTATTTTT-TTAAAATA
1 ATTTTTTTATTTTTATTAAAATA
32896833 TATTTTTTTA
1 -ATTTTTTTA
32896843 ATTTCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.22
23 15 0.56
24 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTTTTTATTTTTATTAAAATA
Found at i:32900012 original size:28 final size:27
Alignment explanation
Indices: 32899981--32900054 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
32899971 AATTTATATA
32899981 TTTATAATTTTAAAAATTAAATTAAATT
1 TTTATAATTTTAAAAATT-AATTAAATT
* ** **
32900009 TTTAATATTTTTAAATGTTAATTTTATT
1 TTT-ATAATTTTAAAAATTAATTAAATT
32900037 TTTATTAA-TTTAAAAATT
1 TTTA-TAATTTTAAAAATT
32900055 TTCCATTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
27 9 0.25
28 15 0.42
29 12 0.33
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTATAATTTTAAAAATTAATTAAATT
Found at i:32900053 original size:29 final size:27
Alignment explanation
Indices: 32899970--32900055 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 27
32899960 ATAATTTTAA
*
32899970 TAATTTATATATTTATAATTTTAAAAATT
1 TAATTT-TATTTTTATAA-TTTAAAAATT
* ** **
32899999 AAATTAAATTTTTA-ATATTTTTAAATGT
1 TAATTTTATTTTTATA-ATTTAAAAAT-T
32900027 TAATTTTATTTTTATTAATTTAAAAATT
1 TAATTTTATTTTTA-TAATTTAAAAATT
32900055 T
1 T
32900056 TCCATTTTAG
Statistics
Matches: 42, Mismatches: 11, Indels: 9
0.68 0.18 0.15
Matches are distributed among these distances:
27 8 0.19
28 21 0.50
29 12 0.29
30 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
TAATTTTATTTTTATAATTTAAAAATT
Found at i:32906550 original size:25 final size:26
Alignment explanation
Indices: 32906490--32906581 Score: 79
Period size: 25 Copynumber: 3.7 Consensus size: 26
32906480 AATTATCAGA
32906490 AAGCTCAT-ACGAGCCATAA-AT-GTA-
1 AAGCTCATGA-GAGCCATAATATCG-AG
* *
32906514 AAGCTCAAGAGAGCCATTA-ATCGAG
1 AAGCTCATGAGAGCCATAATATCGAG
* * *
32906539 AAGCTTATGAGAGCCA-AATATTGGG
1 AAGCTCATGAGAGCCATAATATCGAG
32906564 AAGCTCATGAGAGCCATA
1 AAGCTCATGAGAGCCATA
32906582 TAACGGGATG
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
24 19 0.35
25 35 0.64
26 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (26 bp):
AAGCTCATGAGAGCCATAATATCGAG
Found at i:32906589 original size:25 final size:25
Alignment explanation
Indices: 32906514--32906589 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
32906504 CATAAATGTA
* *
32906514 AAGCTCAAGAGAGCCAT-TAATCGAG
1 AAGCTCATGAGAGCCATATAA-CGGG
* * **
32906539 AAGCTTATGAGAGCCAAATATTGGG
1 AAGCTCATGAGAGCCATATAACGGG
32906564 AAGCTCATGAGAGCCATATAACGGG
1 AAGCTCATGAGAGCCATATAACGGG
32906589 A
1 A
32906590 TGTTTATAAG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.18
Consensus pattern (25 bp):
AAGCTCATGAGAGCCATATAACGGG
Found at i:32906601 original size:25 final size:25
Alignment explanation
Indices: 32906581--32906639 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
32906571 TGAGAGCCAT
*
32906581 ATAACGGGATGTTTATAAGAGCTAA
1 ATAACGGGATGCTTATAAGAGCTAA
**
32906606 ATAATAGGATGCTTATAAGAGCTAA
1 ATAACGGGATGCTTATAAGAGCTAA
32906631 ATAACGGGA
1 ATAACGGGA
32906640 CGCTCTTGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.25
Consensus pattern (25 bp):
ATAACGGGATGCTTATAAGAGCTAA
Found at i:32906602 original size:50 final size:50
Alignment explanation
Indices: 32906514--32906608 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
32906504 CATAAATGTA
*
32906514 AAGCTCAAGAGAGCCATTAATCGAGAAGCTTATGAGAGCCAAATATTGGG
1 AAGCTCAAGAGAGCCATTAATCGAGAAGCTTATAAGAGCCAAATATTGGG
* * * * *
32906564 AAGCTCATGAGAGCCATATAA-CGGGATGTTTATAAGAGCTAAATA
1 AAGCTCAAGAGAGCCAT-TAATCGAGAAGCTTATAAGAGCCAAATA
32906609 ATAGGATGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 35 0.92
51 3 0.08
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (50 bp):
AAGCTCAAGAGAGCCATTAATCGAGAAGCTTATAAGAGCCAAATATTGGG
Found at i:32911401 original size:11 final size:11
Alignment explanation
Indices: 32911380--32911408 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32911370 AGCATCTAGC
32911380 TATTTTT-TTT
1 TATTTTTGTTT
32911390 TATTTTTGTTT
1 TATTTTTGTTT
32911401 TATTTTTG
1 TATTTTTG
32911409 AGTTAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (11 bp):
TATTTTTGTTT
Found at i:32912253 original size:39 final size:39
Alignment explanation
Indices: 32912204--32912284 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
32912194 ACTATGAAAA
32912204 ATGGGTTCTTGTATTGTTTGGAGGGTAGGAGACCAAATG
1 ATGGGTTCTTGTATTGTTTGGAGGGTAGGAGACCAAATG
*
32912243 ATGGGTTCTTGTATTGTTTGGAGGGTTGGAGACCAAATG
1 ATGGGTTCTTGTATTGTTTGGAGGGTAGGAGACCAAATG
32912282 ATG
1 ATG
32912285 TAAGCATAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.22, C:0.07, G:0.36, T:0.35
Consensus pattern (39 bp):
ATGGGTTCTTGTATTGTTTGGAGGGTAGGAGACCAAATG
Found at i:32915815 original size:42 final size:41
Alignment explanation
Indices: 32915738--32915822 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
32915728 AAAAAACACT
*
32915738 TTTGGTGAGAAGCTAAAATTTTCGCCTTATCAAAAAAGTAC
1 TTTGGTGAGAAGCTAAAATTTTCACCTTATCAAAAAAGTAC
*
32915779 TTTGGTGAGAAGCTAAAATTTTCATCTTATCAAAAAAGTAC
1 TTTGGTGAGAAGCTAAAATTTTCACCTTATCAAAAAAGTAC
32915820 TTT
1 TTT
32915823 TGGGCCAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (41 bp):
TTTGGTGAGAAGCTAAAATTTTCACCTTATCAAAAAAGTAC
Found at i:32916799 original size:22 final size:22
Alignment explanation
Indices: 32916757--32916799 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32916747 CATAAAAAGG
*
32916757 GGAGGAGTTTGAATGGCATTTA
1 GGAGGAGTTTGAAGGGCATTTA
32916779 GGAGGAGTTT-AAGGGCTATTT
1 GGAGGAGTTTGAAGGGC-ATTT
32916800 TGAATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.26, C:0.05, G:0.37, T:0.33
Consensus pattern (22 bp):
GGAGGAGTTTGAAGGGCATTTA
Found at i:32918344 original size:16 final size:16
Alignment explanation
Indices: 32918289--32918344 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 16
32918279 TTCCATGAAC
32918289 TTTTATTATATATTCAT
1 TTTTATTATAT-TTCAT
* *
32918306 TTTAATTCT-TTTC-T
1 TTTTATTATATTTCAT
*
32918320 TTTT-GTATATTTCAT
1 TTTTATTATATTTCAT
32918335 TTTTATTATA
1 TTTTATTATA
32918345 ATTATTGACA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
13 2 0.07
14 8 0.27
15 8 0.27
16 5 0.17
17 7 0.23
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTATTATATTTCAT
Found at i:32921077 original size:49 final size:48
Alignment explanation
Indices: 32921000--32921192 Score: 251
Period size: 49 Copynumber: 3.9 Consensus size: 48
32920990 ACTATTGTGA
* * *
32921000 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTT
* ** *
32921049 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GT-T
* *
32921099 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTT
* *
32921148 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
32921193 AGCTTCGGCT
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
48 1 0.01
49 81 0.65
50 41 0.33
51 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTT
Found at i:32921167 original size:99 final size:99
Alignment explanation
Indices: 32920996--32921180 Score: 318
Period size: 99 Copynumber: 1.9 Consensus size: 99
32920986 ATGAACTATT
* *
32920996 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGT
32921061 AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
66 AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
* *
32921095 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTGGTCGCATGTG
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAATTGGTCGCATGTG
32921159 TAGTACTAAGTGCAGGCTACTA
65 TAGTACTAAGTGCAGGCTACTA
32921181 TGCGTACCAG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 80 0.99
100 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (99 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
Found at i:32924216 original size:15 final size:15
Alignment explanation
Indices: 32924196--32924260 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
32924186 GTATCTTGGG
32924196 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
32924211 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
32924226 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
32924241 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
32924255 TTTCTT
1 TTTCTT
32924261 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:32924228 original size:30 final size:31
Alignment explanation
Indices: 32924192--32924260 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
32924182 TATCGTATCT
32924192 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
32924222 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
32924252 -GGTTTTCTT
1 TGGGTTTCTT
32924261 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:32926467 original size:49 final size:48
Alignment explanation
Indices: 32926390--32926582 Score: 233
Period size: 49 Copynumber: 3.9 Consensus size: 48
32926380 ACTATTGTGA
* * *
32926390 GGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTT
* ** *
32926439 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GT-T
* *
32926489 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTT
** * *
32926538 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
32926583 AGCTTCGGCT
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
48 1 0.01
49 81 0.65
50 41 0.33
51 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTT
Found at i:32926476 original size:26 final size:26
Alignment explanation
Indices: 32926447--32926527 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
32926437 TTGGTCGCAT
32926447 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
* * *
32926473 GTGTATTA-GATGGTG-AGG-T-C-AC
1 GTGTAGTACTA-AGTGCAGGCTACTAC
*
32926495 GTGTGTAGTACTAAGTGCAGGCTACTAT
1 --GTGTAGTACTAAGTGCAGGCTACTAC
32926523 GTGTA
1 GTGTA
32926528 CCAGACTGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 16
0.63 0.11 0.25
Matches are distributed among these distances:
22 2 0.05
23 1 0.03
24 11 0.28
25 8 0.20
26 16 0.40
27 1 0.03
28 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.31
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:32926557 original size:99 final size:99
Alignment explanation
Indices: 32926386--32926570 Score: 300
Period size: 99 Copynumber: 1.9 Consensus size: 99
32926376 ATGAACTATT
*
32926386 GTGAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGT
1 GTGAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGT
32926451 AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
66 AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
* * * * *
32926485 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACT-GTTGGTTGCATGTG
1 GTGAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGA-TAATTGGTCGCATGTG
32926549 TAGTACTAAGTGCAGGCTACTA
65 TAGTACTAAGTGCAGGCTACTA
32926571 TGCGTACCAG
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 78 0.99
100 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (99 bp):
GTGAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
Found at i:32928873 original size:23 final size:23
Alignment explanation
Indices: 32928846--32928890 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
32928836 AGATTTTTCC
32928846 TAAATATTATCACTAAATAATTT
1 TAAATATTATCACTAAATAATTT
32928869 TAAATATTATCACTAAATAATT
1 TAAATATTATCACTAAATAATT
32928891 CAAAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTT
Found at i:32928896 original size:23 final size:23
Alignment explanation
Indices: 32928847--32928896 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
32928837 GATTTTTCCT
**
32928847 AAATATTATCACTAAATAATTTT
1 AAATATTATCACTAAATAATTCA
32928870 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
32928893 AAAT
1 AAAT
32928897 TTAAAAATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCA
Found at i:32936078 original size:5 final size:5
Alignment explanation
Indices: 32936070--32936095 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32936060 GAAAATACGA
32936070 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
32936096 TATTCTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:32937030 original size:23 final size:23
Alignment explanation
Indices: 32936952--32937026 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
32936942 TAGATTTTTC
32936952 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
32936975 TTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
* *
32936998 CTAGATTTTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
32937021 CAAAAT
1 CTAAAT
32937027 TTTAAAATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.40
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:32947606 original size:11 final size:11
Alignment explanation
Indices: 32947592--32947627 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
32947582 TTAAAATAAT
32947592 TTTTTATTTTA
1 TTTTTATTTTA
*
32947603 TTTTTATTTTC
1 TTTTTATTTTA
*
32947614 TTTTAATTTTA
1 TTTTTATTTTA
32947625 TTT
1 TTT
32947628 CATCCTTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:32947617 original size:16 final size:16
Alignment explanation
Indices: 32947593--32947627 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32947583 TAAAATAATT
*
32947593 TTTTATTTTATTTTTA
1 TTTTATTTTAATTTTA
*
32947609 TTTTCTTTTAATTTTA
1 TTTTATTTTAATTTTA
32947625 TTT
1 TTT
32947628 CATCCTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTAATTTTA
Found at i:32973255 original size:48 final size:48
Alignment explanation
Indices: 32973180--32973319 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
32973170 AACATAGTAA
* * * ** *
32973180 GATGCCAATGCCATATTCCAGATATGGTCTTACATGGGATCACATGTT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAATC
* *
32973228 GATGCCAATGCCATGTCCCAGACATGGTCTGACATGGGATCTCAAATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAATC
*
32973276 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
32973320 CATAACTCTA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAATC
Found at i:32978957 original size:39 final size:38
Alignment explanation
Indices: 32978914--32979041 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 38
32978904 TAACTCATAC
* *
32978914 AATGCCTTCGGGACTTAACCCGACTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGA-ATTAAAACTCGCACA
* *
32978953 AATGCCTTCGGGACTTAACCCGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGAATTA-AAACTCGCACA
*
32978992 AAGGCCTTCGGGACTTAACCCGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGAATTAA-AACTCGCACA
32979031 AATGCCTTCGG
1 AATGCCTTCGG
32979042 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 3 0.04
39 76 0.96
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAACCCGAATTAAAACTCGCACA
Found at i:32978999 original size:78 final size:79
Alignment explanation
Indices: 32978912--32979092 Score: 219
Period size: 78 Copynumber: 2.3 Consensus size: 79
32978902 AGTAACTCAT
* * *
32978912 ACAATGCCTTCGGGACTTAACCCGACTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
32978975 AAT-TAGT-A-TCTCGC
64 AATATAGTCACT-TAGC
** *
32978989 ACAAAGGCCTTCGGGACTTAACCCGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 ACAAA-GCCTTCGGGACTTAACCCGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGA
32979054 ATATAGTCACTTAGC
65 ATATAGTCACTTAGC
*
32979069 ACAAAGCCTTCGGGACTTAGCCCG
1 ACAAAGCCTTCGGGACTTAACCCG
32979093 GACAGCATTC
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
77 11 0.12
78 47 0.52
79 22 0.24
80 9 0.10
81 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGAA
TATAGTCACTTAGC
Found at i:32979088 original size:40 final size:39
Alignment explanation
Indices: 32978878--32979094 Score: 142
Period size: 39 Copynumber: 5.5 Consensus size: 39
32978868 TCGTTCAAGT
* * *
32978878 GCCTTCGGGACATAGCCCGG-TTATAGTAACT--CATACAAT
1 GCCTTCGGGACTTAGCCCGGATTA-A-TAACTAGCACA-AAG
* * * *
32978917 GCCTTCGGGACTTAACCC-GACTTTAA-AACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGA--TTAATAACTAGCACAAAG
* * * * *
32978956 GCCTTCGGGACTTAACCCGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATTAATAACTAGCACAAAG
* * * *
32978995 GCCTTCGGGACTTAACCCGAATTAATAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATTAATAACTAGCACAAAG
* * *
32979034 GCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGAT-TAATAAC-TAGCACAAAG
32979074 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
32979095 CAGCATTCAA
Statistics
Matches: 148, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
38 11 0.07
39 98 0.66
40 25 0.17
41 14 0.09
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGATTAATAACTAGCACAAAG
Found at i:33001055 original size:40 final size:40
Alignment explanation
Indices: 33000912--33001095 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
33000902 TAACTCATAC
* *
33000912 AATGCCTTCGGGACTTAACCCGGACTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
33000952 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* *
33000992 GAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
33001032 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
33001073 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33001096 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:33001055 original size:80 final size:80
Alignment explanation
Indices: 33000875--33001097 Score: 233
Period size: 80 Copynumber: 2.8 Consensus size: 80
33000865 CTCGTTCAAG
* * * * * * * *
33000875 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGACTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGACAT
*
33000939 TAAAACTCGCACGAA
66 TAAAACTCGCACAAA
* *
33000954 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAGAGGCCTTCGGGACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACA-AAGCCTTCGGGACTTAACCCGGA
33001016 -ATTAATAACTCGCACAAA
63 CATTAA-AACTCGCACAAA
** *
33001034 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGACA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGACA
33001098 GCATTCAATT
Statistics
Matches: 120, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 33 0.28
80 74 0.62
81 9 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGACAT
TAAAACTCGCACAAA
Found at i:33004187 original size:27 final size:27
Alignment explanation
Indices: 33004157--33004334 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
33004147 ATATTGAGCC
* *
33004157 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
33004184 CGCACACTTAGTGTTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
33004211 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
33004239 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
33004266 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
33004293 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
33004320 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
33004335 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33004270 original size:82 final size:81
Alignment explanation
Indices: 33004178--33004333 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
33004168 TGCTATATAA
* *
33004178 TCAACTCGCACACTTAGTG-TTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
33004242 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * ** *
33004260 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
*
33004325 CCTTAGTGC
66 ACTTAGTGC
33004334 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33010440 original size:25 final size:25
Alignment explanation
Indices: 33010405--33010455 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
33010395 CTTATCAACA
*
33010405 ATTTTTAGGGAATTTAAGTCCTCAT
1 ATTTTTAGGGAATTCAAGTCCTCAT
*
33010430 ATTTTTGGGGAATTCAAGTCCTCAT
1 ATTTTTAGGGAATTCAAGTCCTCAT
33010455 A
1 A
33010456 CATTCCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (25 bp):
ATTTTTAGGGAATTCAAGTCCTCAT
Found at i:33013000 original size:42 final size:42
Alignment explanation
Indices: 33012901--33013056 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 42
33012891 GCTCGTAGAG
* * *
33012901 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATTATCGA
1 TGCCAACGTCCCAGACATGGTCTTACACGAAATCAA-TATCGA
* *
33012944 TGCC-ACTGTCCCAGACAAGGTCTTACACGAAATC-GTATACGA
1 TGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAATAT-CGA
* *
33012986 TGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGA
1 TGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-ATATCGA
*
33013030 TGCCAACGTCCCAGACGTGGTCTTACA
1 TGCCAACGTCCCAGACATGGTCTTACA
33013057 TGATAACACA
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
41 3 0.03
42 30 0.31
43 33 0.34
44 28 0.29
45 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
TGCCAACGTCCCAGACATGGTCTTACACGAAATCAATATCGA
Found at i:33013494 original size:8 final size:8
Alignment explanation
Indices: 33013483--33013507 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33013473 AAATTAGCCC
33013483 TCACATTT
1 TCACATTT
33013491 TCACATTT
1 TCACATTT
33013499 TCACATTT
1 TCACATTT
33013507 T
1 T
33013508 AGTCCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:33038860 original size:42 final size:44
Alignment explanation
Indices: 33038760--33038952 Score: 187
Period size: 44 Copynumber: 4.5 Consensus size: 44
33038750 CAATGCTAAC
* * * * * *
33038760 GTCCCAGACGTGGTCTTACATGT-AATCA-ATTATTGATGACACT
1 GTCCCAGACATGGTCTTACACGTAAATCACA-AATCGATGCCAAT
* * * ** *
33038803 GTCCCAGATAGGGTCTTAGACG-AAATCGTATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
33038845 GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
* * *
33038889 GTCCCAGACATGGTCTTACACGTAAATCAAAAATTGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
* * *
33038933 ATCCCAGACGTGGCCTTACA
1 GTCCCAGACATGGTCTTACA
33038953 TGATAACACA
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
42 26 0.21
43 30 0.24
44 69 0.55
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
Done.